eval

Bindings for core::fragment::picking_old::vall::eval namespace

class pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval

Bases: VallFragmentEval

scores a fragment based on sum of secondary structure identity and sequence identity

abego_str(*args, **kwargs)

Overloaded function.

1. abego_str(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval) -> pyrosetta.rosetta.utility.vector1_std_string

get secondary structure string

C++: core::fragment::picking_old::vall::eval::ABEGOEval::abego_str() const –> const class utility::vector1<std::string, class std::allocator<std::string > > &

2. abego_str(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval, abego: pyrosetta.rosetta.utility.vector1_std_string) -> None

set abego vector of string

C++: core::fragment::picking_old::vall::eval::ABEGOEval::abego_str(const class utility::vector1<std::string, class std::allocator<std::string > > &) –> void

assign(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval, rval: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval

copy assignment

C++: core::fragment::picking_old::vall::eval::ABEGOEval::operator=(const class core::fragment::picking_old::vall::eval::ABEGOEval &) –> class core::fragment::picking_old::vall::eval::ABEGOEval &

clone(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval

clone this object

C++: core::fragment::picking_old::vall::eval::ABEGOEval::clone() const –> class std::shared_ptr<class core::fragment::picking_old::vall::eval::VallFragmentEval>

penalty(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval) → float

get secondary structure penalty

C++: core::fragment::picking_old::vall::eval::ABEGOEval::penalty() const –> double

post_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be performed after catalog() finished

C++: core::fragment::picking_old::vall::eval::VallFragmentEval::post_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void

pre_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be perform before catalog() starts

C++: core::fragment::picking_old::vall::eval::ABEGOEval::pre_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void

randomize(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.ABEGOEval) → bool

adding random noise to score?

C++: core::fragment::picking_old::vall::eval::ABEGOEval::randomize() const –> bool

class pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval

Bases: VallFragmentEval

scores a fragment by inserting its backbone angles into a Pose and

evaluating its energy using a given ScoreFunction

Useful for e.g. evaluating a chainbreak score, constraint score, etc.

Class currently assumes insertion of backbone angles into protein

residues.

assign(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval, rval: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval

copy assignment

C++: core::fragment::picking_old::vall::eval::EnergyEval::operator=(const class core::fragment::picking_old::vall::eval::EnergyEval &) –> class core::fragment::picking_old::vall::eval::EnergyEval &

clone(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval

clone this object

C++: core::fragment::picking_old::vall::eval::EnergyEval::clone() const –> class std::shared_ptr<class core::fragment::picking_old::vall::eval::VallFragmentEval>

insert_position(*args, **kwargs)

Overloaded function.

1. insert_position(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval) -> int

insert angles into the Pose starting from this position

C++: core::fragment::picking_old::vall::eval::EnergyEval::insert_position() const –> unsigned long

2. insert_position(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval, position: int) -> None

insert angles into the Pose starting from this position

C++: core::fragment::picking_old::vall::eval::EnergyEval::insert_position(const unsigned long) –> void

pose(*args, **kwargs)

Overloaded function.

1. pose(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval) -> pyrosetta.rosetta.core.pose.Pose

the Pose to evaluate

C++: core::fragment::picking_old::vall::eval::EnergyEval::pose() const –> const class core::pose::Pose &

2. pose(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval, p: pyrosetta.rosetta.core.pose.Pose) -> None

the Pose to evaluate

C++: core::fragment::picking_old::vall::eval::EnergyEval::pose(const class core::pose::Pose &) –> void

post_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be performed after catalog() finished

C++: core::fragment::picking_old::vall::eval::VallFragmentEval::post_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void

pre_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be perform before catalog() starts

C++: core::fragment::picking_old::vall::eval::EnergyEval::pre_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void

randomize(*args, **kwargs)

Overloaded function.

1. randomize(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval) -> bool

adding random noise between [0, 0.000001) to the energy?

C++: core::fragment::picking_old::vall::eval::EnergyEval::randomize() const –> bool

2. randomize(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval, flag: bool) -> None

set flag to add random noise between [0, 0.000001) to the energy

C++: core::fragment::picking_old::vall::eval::EnergyEval::randomize(const bool) –> void

score_function(*args, **kwargs)

Overloaded function.

1. score_function(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval) -> pyrosetta.rosetta.core.scoring.ScoreFunction

the ScoreFunction used to evaluate the pose

C++: core::fragment::picking_old::vall::eval::EnergyEval::score_function() const –> class std::shared_ptr<const class core::scoring::ScoreFunction>

2. score_function(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.EnergyEval, fx: pyrosetta.rosetta.core.scoring.ScoreFunction) -> None

the ScoreFunction used to evaluate the pose

C++: core::fragment::picking_old::vall::eval::EnergyEval::score_function(const class core::scoring::ScoreFunction &) –> void

class pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval

Bases: VallFragmentEval

scores a fragment based on sum of secondary structure identity and sequence identity

aa_penalty(*args, **kwargs)

Overloaded function.

1. aa_penalty(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval) -> float

get amino acid penalty

C++: core::fragment::picking_old::vall::eval::IdentityEval::aa_penalty() const –> double

2. aa_penalty(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval, penalty: float) -> None

set amino acid penalty

C++: core::fragment::picking_old::vall::eval::IdentityEval::aa_penalty(const double) –> void

aa_str(*args, **kwargs)

Overloaded function.

1. aa_str(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval) -> str

get amino acid string

C++: core::fragment::picking_old::vall::eval::IdentityEval::aa_str() const –> const std::string &

2. aa_str(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval, aa: str) -> None

set amino acid string

C++: core::fragment::picking_old::vall::eval::IdentityEval::aa_str(const std::string &) –> void

assign(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval, rval: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval

copy assignment

C++: core::fragment::picking_old::vall::eval::IdentityEval::operator=(const class core::fragment::picking_old::vall::eval::IdentityEval &) –> class core::fragment::picking_old::vall::eval::IdentityEval &

clone(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval

clone this object

C++: core::fragment::picking_old::vall::eval::IdentityEval::clone() const –> class std::shared_ptr<class core::fragment::picking_old::vall::eval::VallFragmentEval>

post_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be performed after catalog() finished

C++: core::fragment::picking_old::vall::eval::VallFragmentEval::post_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void

pre_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be perform before catalog() starts

C++: core::fragment::picking_old::vall::eval::IdentityEval::pre_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void

randomize(*args, **kwargs)

Overloaded function.

1. randomize(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval) -> bool

adding random noise to score?

C++: core::fragment::picking_old::vall::eval::IdentityEval::randomize() const –> bool

2. randomize(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval, flag: bool) -> None

set flag to add random noise between [0, 0.001) to score

C++: core::fragment::picking_old::vall::eval::IdentityEval::randomize(const bool) –> void

ss_penalty(*args, **kwargs)

Overloaded function.

1. ss_penalty(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval) -> float

get secondary structure penalty

C++: core::fragment::picking_old::vall::eval::IdentityEval::ss_penalty() const –> double

2. ss_penalty(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval, penalty: float) -> None

set secondary structure penalty

C++: core::fragment::picking_old::vall::eval::IdentityEval::ss_penalty(const double) –> void

ss_str(*args, **kwargs)

Overloaded function.

1. ss_str(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval) -> str

get secondary structure string

C++: core::fragment::picking_old::vall::eval::IdentityEval::ss_str() const –> const std::string &

2. ss_str(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.IdentityEval, ss: str) -> None

set secondary structure string

C++: core::fragment::picking_old::vall::eval::IdentityEval::ss_str(const std::string &) –> void

class pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval

Bases: pybind11_object

base class for Vall ExtentEvaluator

assign(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval, rval: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval

copy assignment

C++: core::fragment::picking_old::vall::eval::VallFragmentEval::operator=(const class core::fragment::picking_old::vall::eval::VallFragmentEval &) –> class core::fragment::picking_old::vall::eval::VallFragmentEval &

clone(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval) → pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval

clone this object

C++: core::fragment::picking_old::vall::eval::VallFragmentEval::clone() const –> class std::shared_ptr<class core::fragment::picking_old::vall::eval::VallFragmentEval>

post_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be performed after catalog() finished

C++: core::fragment::picking_old::vall::eval::VallFragmentEval::post_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void

pre_catalog_op(self: pyrosetta.rosetta.core.fragment.picking_old.vall.eval.VallFragmentEval, : pyrosetta.rosetta.core.fragment.picking_old.vall.VallLibrary) → None

operation to be perform before catalog() starts

C++: core::fragment::picking_old::vall::eval::VallFragmentEval::pre_catalog_op(const class core::fragment::picking_old::vall::VallLibrary &) –> void